Resolution: 3.72 Å
EM Method: Single-particle
Fitted PDBs: 8iht
Q-score: 0.345
Zhang Y, Xu M, Wang P, Zhou J, Wang G, Han S, Cai G, Wang X
Cell Res (2023) 33 pp. 971-974 [ Pubmed: 37845487 DOI: doi:10.1038/s41422-023-00884-2 ]
- Rco1 isoform 1 (78 kDa, Protein from Saccharomyces cerevisiae)
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae)
- Dna (164-mer) (50 kDa, DNA from Xenopus laevis)
- Transcriptional regulatory protein sin3 (175 kDa, Protein from Saccharomyces cerevisiae)
- Dna (165-mer) (51 kDa, DNA from Xenopus laevis)
- Eaf3 chd domain bound to the nucleosome (Complex from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone deacetylase rpd3 (48 kDa, Protein from Saccharomyces cerevisiae)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Calcium ion (40 Da, Ligand)
- Histone h2b (13 kDa, Protein from Xenopus laevis)
Cryo-EM map of Rpd3S in loose-state Rpd3S-NCP complex
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7yi2
Q-score: 0.483
Guan H, Wang P, Zhang P, Ruan C, Ou Y, Peng B, Zheng X, Lei J, Li B, Yan C, Li H
Nature (2023) 620 pp. 669-675 [ DOI: doi:10.1038/s41586-023-06349-1 Pubmed: 37468628 ]
- Wisdom 601 dna (167-mer) (51 kDa, DNA from synthetic construct)
- Transcriptional regulatory protein sin3 (175 kDa, Protein from Saccharomyces cerevisiae S288C)
- Rpd3s complex with h3k36me3 nucleosome (723 MDa, Complex from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Wisdom 601 dna (167-mer) (51 kDa, DNA from synthetic construct)
- Transcriptional regulatory protein rco1 (78 kDa, Protein from Saccharomyces cerevisiae S288C)
- Histone deacetylase rpd3 (48 kDa, Protein from Saccharomyces cerevisiae S288C)
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae S288C)
- Sin3/rpd3/eaf3/rco1 (Complex)
- Dna (Complex from Saccharomyces cerevisiae S288C)
Cryo-EM map of Rpd3S complex bound to H3K36me3 nucleosome in close state
Resolution: 3.96 Å
EM Method: Single-particle
Fitted PDBs: 7yi4
Q-score: 0.23
Guan H, Wang P, Zhang P, Ruan C, Ou Y, Peng B, Zheng X, Lei J, Li B, Yan C, Li H
Nature (2023) 620 pp. 669-675 [ DOI: doi:10.1038/s41586-023-06349-1 Pubmed: 37468628 ]
- Sin3/rpd3/eaf3/rco1 (Complex from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae S288C)
- Wisdom 601 dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone deacetylase rpd3 (48 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna (Complex from Xenopus laevis)
- Wisdom 601 dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h3 (Complex)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Rpd3s complex with h3k36me3 nucleosome (723 MDa, Complex from Saccharomyces cerevisiae S288C)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Transcriptional regulatory protein rco1 (78 kDa, Protein from Saccharomyces cerevisiae S288C)
- Histone h4/h2a/h2b 1.1 (Complex from synthetic construct)
- Transcriptional regulatory protein sin3 (175 kDa, Protein from Saccharomyces cerevisiae S288C)
Cryo-EM msp of Rpd3S complex bound to H3K36me3 nucleosome in loose state
Resolution: 3.96 Å
EM Method: Single-particle
Fitted PDBs: 7yi5
Q-score: 0.254
Guan H, Wang P, Zhang P, Ruan C, Ou Y, Peng B, Zheng X, Lei J, Li B, Yan C, Li H
Nature (2023) 620 pp. 669-675 [ DOI: doi:10.1038/s41586-023-06349-1 Pubmed: 37468628 ]
- Wisdom 601 dna (167-mer) (51 kDa, DNA from synthetic construct)
- Dna (Complex from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Transcriptional regulatory protein sin3 (175 kDa, Protein from Saccharomyces cerevisiae S288C)
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae S288C)
- Zinc ion (65 Da, Ligand)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h3 (Complex)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Wisdom 601 dna (167-mer) (51 kDa, DNA from synthetic construct)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Transcriptional regulatory protein rco1 (78 kDa, Protein from Saccharomyces cerevisiae S288C)
- Histone deacetylase rpd3 (48 kDa, Protein from Saccharomyces cerevisiae S288C)
- Histone h4/h2a/h2b 1.1 (Complex from synthetic construct)
- Rpd3s complex with h3k36me3 nucleosome (723 MDa, Complex from Saccharomyces cerevisiae S288C)
- Sin3/rpd3/eaf3/rco1 (Complex from Xenopus laevis)
Cryo-EM structure of Sr35 resistosome induced by AvrSr35 R381A
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7xx2
Q-score: 0.418
Zhao YB, Liu MX, Chen TT, Ma X, Li ZK, Zheng Z, Zheng SR, Chen L, Li YZ, Tang LR, Chen Q, Wang P, Ouyang S
Sci Adv (2022) 8 pp. eabq5108-eabq5108 [ DOI: doi:10.1126/sciadv.abq5108 Pubmed: 36083908 ]
- Sr35 resistosome (Complex)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Avrsr35 (66 kDa, Protein from Puccinia graminis f. sp. tritici)
- Avrsr35 (Complex from Puccinia graminis f.sp.tritici)
- Cnl9 (105 kDa, Protein from Triticum monococcum)
- Sr35 (Complex from Triticum monococcum)
SARS-CoV-2 BA.2.75 S Trimer in complex with XG2v024
Resolution: 3.62 Å
EM Method: Single-particle
Fitted PDBs: 7yr1
Q-score: 0.459
Cao Y, Song W, Wang L, Liu P, Yue C, Jian F, Yu Y, Yisimayi A, Wang P, Wang Y, Zhu Q, Deng J, Fu W, Yu L, Zhang N, Wang J, Xiao T, An R, Wang J, Liu L, Yang S, Niu X, Gu Q, Shao F, Hao X, Meng B, Gupta RK, Jin R, Wang Y, Xie XS, Wang X
Cell Host Microbe (2022) 30 pp. 1527- [ DOI: doi:10.1016/j.chom.2022.09.018 Pubmed: 36270286 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ba.2.75 s trimer in complex with xg2v024 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Xg2v024 light chain (11 kDa, Protein from Homo sapiens)
- Xg2v024 heavy/light chains (Complex)
- Xg2v024 heavy chain (13 kDa, Protein from Homo sapiens)
- Ba.2.75 s trimer (Complex from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 BA.2.75 S Trimer in complex with ACE2(state1)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7yr2
Q-score: 0.354
Cao Y, Song W, Wang L, Liu P, Yue C, Jian F, Yu Y, Yisimayi A, Wang P, Wang Y, Zhu Q, Deng J, Fu W, Yu L, Zhang N, Wang J, Xiao T, An R, Wang J, Liu L, Yang S, Niu X, Gu Q, Shao F, Hao X, Meng B, Gupta RK, Jin R, Wang Y, Xie XS, Wang X
Cell Host Microbe (2022) 30 pp. 1527- [ Pubmed: 36270286 DOI: doi:10.1016/j.chom.2022.09.018 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Chloride ion (35 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Water (18 Da, Ligand)
- Ba.2.75 s trimer (Complex)
- Angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ba.2.75 s trimer in complex with ace2 (Complex from Homo sapiens)
SARS-CoV-2 BA.2.75 S Trimer in complex with ACE2(state2)
Resolution: 3.52 Å
EM Method: Single-particle
Fitted PDBs: 7yr3
Q-score: 0.314
Cao Y, Song W, Wang L, Liu P, Yue C, Jian F, Yu Y, Yisimayi A, Wang P, Wang Y, Zhu Q, Deng J, Fu W, Yu L, Zhang N, Wang J, Xiao T, An R, Wang J, Liu L, Yang S, Niu X, Gu Q, Shao F, Hao X, Meng B, Gupta RK, Jin R, Wang Y, Xie XS, Wang X
Cell Host Microbe (2022) 30 pp. 1527- [ Pubmed: 36270286 DOI: doi:10.1016/j.chom.2022.09.018 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ba.2.75 spike trimer (Complex from Homo sapiens)
- Chloride ion (35 Da, Ligand)
- Water (18 Da, Ligand)
- Ace2 (Complex)
- Ba.2.75 spike trimer in complex with ace2 (state2) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of plant NLR Sr35 resistosome
Resolution: 3.33 Å
EM Method: Single-particle
Fitted PDBs: 7xe0
Q-score: 0.351
Zhao YB, Liu MX, Chen TT, Ma X, Li ZK, Zheng Z, Zheng SR, Chen L, Li YZ, Tang LR, Chen Q, Wang P, Ouyang S
Sci Adv (2022) 8 pp. eabq5108-eabq5108 [ DOI: doi:10.1126/sciadv.abq5108 Pubmed: 36083908 ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Sr35 (105 kDa, Protein from Triticum monococcum)
- Sr35 resistosome (Complex)
- Sr35 (Complex from Triticum monococcum)
- Avrsr35 (66 kDa, Protein from Puccinia graminis f. sp. tritici)
- Avrsr35 (Complex from Puccinia graminis f. sp. tritici)
Resolution: 3.24 Å
EM Method: Single-particle
Fitted PDBs: 7n5h
Q-score: 0.321
Wang P, Casner RG, Nair MS, Yu J, Guo Y, Wang M, Chan JF, Cerutti G, Iketani S, Liu L, Sheng Z, Chen Z, Yuen KY, Kwong PD, Huang Y, Shapiro L, Ho DD
Emerg Microbes Infect (2022) 11 pp. 147-157 [ Pubmed: 34836485 DOI: doi:10.1080/22221751.2021.2011623 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Broadly neutralizing antibody 2-36 in complex with prefusion sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-36 fab heavy chain (14 kDa, Protein from Homo sapiens)
- 2-36 fab light chain (11 kDa, Protein from Homo sapiens)